The cellulose synthase (CesA) gene family in four Gossypium species: phylogenetics, sequence variation and gene expression in relation to fiber quality in Upland cotton
- PMID: 33438049
- DOI: 10.1007/s00438-020-01758-7
The cellulose synthase (CesA) gene family in four Gossypium species: phylogenetics, sequence variation and gene expression in relation to fiber quality in Upland cotton
Abstract
Cellulose synthases (CesAs) are multi-subunit enzymes found on the plasma membrane of plant cells and play a pivotal role in cellulose production. The cotton fiber is mainly composed of cellulose, and the genetic relationships between CesA genes and cotton fiber yield and quality are not fully understood. Through a phylogenetic analysis, the CesA gene family in diploid Gossypium arboreum and Gossypium raimondii, as well as tetraploid Gossypium hirsutum ('TM-1') and Gossypium barbadense ('Hai-7124' and '3-79'), was divided into 6 groups and 15 sub-groups, with each group containing two to five homologous genes. Most CesA genes in the four species are highly collinear. Among the five cotton genomes, 440 and 1929 single nucleotide polymorphisms (SNPs) in the CesA gene family were identified in exons and introns, respectively, including 174 SNPs resulting in amino acid changes. In total, 484 homeologous SNPs between the A and D genomes were identified in diploids, while 142 SNPs were detected between the two tetraploids, with 32 and 82 SNPs existing within G. hirsutum and G. barbadense, respectively. Additionally, 74 quantitative trait loci near 18 GhCesA genes were associated with fiber quality. One to four GhCesA genes were differentially expressed (DE) in ovules at 0 and 3 days post anthesis (DPA) between two backcross inbred lines having different fiber lengths, but no DE genes were identified between these lines in developing fibers at 10 DPA. Twenty-seven SNPs in above DE CesA genes were detected among seven cotton lines, including one SNP in Ghi_A08G03061 that was detected in four G. hirsutum genotypes. This study provides the first comprehensive characterization of the cotton CesA gene family, which may play important roles in determining cotton fiber quality.
Keywords: Cellulose synthase genes; Fiber quality; Gossypium spp.; RNA-seq; Sanger sequencing; Snps.
Similar articles
-
A genome-wide analysis of pentatricopeptide repeat (PPR) protein-encoding genes in four Gossypium species with an emphasis on their expression in floral buds, ovules, and fibers in upland cotton.Mol Genet Genomics. 2020 Jan;295(1):55-66. doi: 10.1007/s00438-019-01604-5. Epub 2019 Aug 24. Mol Genet Genomics. 2020. PMID: 31446488
-
A genome-wide analysis of the lysophosphatidate acyltransferase (LPAAT) gene family in cotton: organization, expression, sequence variation, and association with seed oil content and fiber quality.BMC Genomics. 2017 Mar 1;18(1):218. doi: 10.1186/s12864-017-3594-9. BMC Genomics. 2017. PMID: 28249560 Free PMC article.
-
Genome-wide comparative analysis of NBS-encoding genes in four Gossypium species.BMC Genomics. 2017 Apr 12;18(1):292. doi: 10.1186/s12864-017-3682-x. BMC Genomics. 2017. PMID: 28403834 Free PMC article.
-
Genome-wide association study reveals novel quantitative trait loci and candidate genes of lint percentage in upland cotton based on the CottonSNP80K array.Theor Appl Genet. 2022 Jul;135(7):2279-2295. doi: 10.1007/s00122-022-04111-1. Epub 2022 May 16. Theor Appl Genet. 2022. PMID: 35570221 Review.
-
Identification of BR biosynthesis genes in cotton reveals that GhCPD-3 restores BR biosynthesis and mediates plant growth and development.Planta. 2021 Sep 17;254(4):75. doi: 10.1007/s00425-021-03727-9. Planta. 2021. PMID: 34533620 Review.
Cited by
-
Comparative Transcriptomic Analysis of Gossypium hirsutum Fiber Development in Mutant Materials (xin w 139) Provides New Insights into Cotton Fiber Development.Plants (Basel). 2024 Apr 17;13(8):1127. doi: 10.3390/plants13081127. Plants (Basel). 2024. PMID: 38674536 Free PMC article.
-
An aldehyde dehydrogenase gene, GhALDH7B4_A06, positively regulates fiber strength in upland cotton (Gossypium hirsutum L.).Front Plant Sci. 2024 Apr 26;15:1377682. doi: 10.3389/fpls.2024.1377682. eCollection 2024. Front Plant Sci. 2024. PMID: 38736450 Free PMC article.
-
Transcriptome and co-expression network analysis reveal the genetic basis of cell wall components in maize stalks.BMC Genomics. 2025 Jul 1;26(1):620. doi: 10.1186/s12864-025-11816-2. BMC Genomics. 2025. PMID: 40597629 Free PMC article.
-
Revealing Genetic Differences in Fiber Elongation between the Offspring of Sea Island Cotton and Upland Cotton Backcross Populations Based on Transcriptome and Weighted Gene Coexpression Networks.Genes (Basel). 2022 May 26;13(6):954. doi: 10.3390/genes13060954. Genes (Basel). 2022. PMID: 35741716 Free PMC article.
-
A comprehensive overview of cotton genomics, biotechnology and molecular biological studies.Sci China Life Sci. 2023 Oct;66(10):2214-2256. doi: 10.1007/s11427-022-2278-0. Epub 2023 Mar 6. Sci China Life Sci. 2023. PMID: 36899210 Review.
References
-
- Abdurakhmonov IY, Kohel RJ, Yu JZ, Pepper AE, Abdullaev AA, Kushanov FN, Salakhutdinov IB, Buriev ZT, Saha S, Scheffler BE, Jenkins JN, Abdukarimov A (2008) Molecular diversity and association mapping of fiber quality traits in exotic G. hirsutum L. germplasm. Genomics 92:478–487 - PubMed
-
- Basra AS, Malik CP (1984) Development of the cotton fiber. Int Rev Cytol 89:65–113
-
- Boli Y, Hu W, Li X, Cao J, Fan L (2015) Over-expression of GhUGP1 in Upland cotton improves fibre quality and reduces fibre sugar content. Plant Breed 134:197–202
-
- Cao S, Cheng H, Zhang J, Aslam M, Yan M, Hu A, Lin L, Ojolo SP, Zhao H, Priyadarshani S, Yu Y, Cao G, Qin Y (2019) Genome-wide identification, expression pattern analysis and evolution of the Ces/Csl Gene superfamily in Pineapple (Ananas comosus). Plants (Basel) 8:275
MeSH terms
Substances
Grants and funding
LinkOut - more resources
Full Text Sources
Other Literature Sources
Miscellaneous